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        <title>Tiki RSS feed for forums</title>
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        <lastBuildDate>Thu, 17 May 2012 21:35:24 +0100</lastBuildDate>
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            <title>COPASI</title>
            <link>http://www.copasi.org/tiki-view_articles.php</link>
            <description><![CDATA[Feed provided by COPASI. Click to visit.]]></description>
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        <language>en-us</language>
        <webMaster>webmaster@copasi.org</webMaster>
        <item>
            <title>Add just equilibrium constant for a reaction step?</title>
            <link>http://www.copasi.org/tiki-view_forum_thread.php?forumId=1&amp;comments_parentId=1528</link>
            <description><![CDATA[Sorry if this question is a bit naive, but I am trying to build a published model.  The first step in the reaction pathway only has an equilibrium constant.  It is in units of per M, so I'm guessing the authors assumed an excess of one of the two reactants.

My question is: can/how do I enter this into COPASI?  I looked at the available functions, and some have equilibrium constants but require more parameters that I have.  For instance, ordered bi-uni has four different equilibrium constants.  

Thanks in advance.
drayel]]></description>
            <author>drayel</author>
            <pubDate>Thu, 17 May 2012 16:53:41 +0100</pubDate>
        </item>
        <item>
            <title>Copasi development builds?</title>
            <link>http://www.copasi.org/tiki-view_forum_thread.php?forumId=1&amp;comments_parentId=1527</link>
            <description><![CDATA[Hi,

Would the development team ever make the Copasi nightly or development builds publicly available?  Obviously this would be in the understanding that there was no technical support or "warranty" when using this build, but it would be interesting to see the features in development, or pick up the latest bug fixes.]]></description>
            <author>micronaut</author>
            <pubDate>Wed, 16 May 2012 10:49:32 +0100</pubDate>
        </item>
        <item>
            <title>Reversible Michaelis-Menten rate equation</title>
            <link>http://www.copasi.org/tiki-view_forum_thread.php?forumId=1&amp;comments_parentId=1524</link>
            <description><![CDATA[Hello,
I am trying to derive the formula for the rate function "Reversible Michaelis-Menten" predefined in COPASI.  The one I am used to using is different (just the difference of two irreversible Michaelis-Menten).  Is there a difference?]]></description>
            <author>ddiedrichs</author>
            <pubDate>Wed, 16 May 2012 00:54:17 +0100</pubDate>
        </item>
        <item>
            <title>Parameter estimation for steady state data</title>
            <link>http://www.copasi.org/tiki-view_forum_thread.php?forumId=1&amp;comments_parentId=1523</link>
            <description><![CDATA[Hello,
I am trying to do parameter estimation by fitting the steady state data I have, which is simply the steady state concentrations of each species.  How should I label that data?  Copasi only gives the option of "Transient Concentration (t)"  Thanks!]]></description>
            <author>ddiedrichs</author>
            <pubDate>Wed, 16 May 2012 00:50:32 +0100</pubDate>
        </item>
        <item>
            <title>Copasi Sensitivity Analysis</title>
            <link>http://www.copasi.org/tiki-view_forum_thread.php?forumId=1&amp;comments_parentId=1521</link>
            <description><![CDATA[Hi all

I am performing Sensitivity Analysis on a model in Copasi, but I am not sure I understand what the options and results mean. Here are the options I select for Sensitivities:

Subtask: Steady State
Function: Non-Constant Concentrations of Species
Variable: Initial Concentrations
Second Variable: Not Set

As I understand, this should calculate S = dX_1/dX_2, where X_1 and X_2 are the different Species in the model. But, I think S will change with time, so why do results give me S matrix at 1 time point (is it the last time point?). Also, what does subtask: Steady State mean? What do the other options in subtask do?

Thanks!
SN]]></description>
            <author>SN1144</author>
            <pubDate>Thu, 10 May 2012 14:29:44 +0100</pubDate>
        </item>
        <item>
            <title>crash while saving 'Notes'</title>
            <link>http://www.copasi.org/tiki-view_forum_thread.php?forumId=1&amp;comments_parentId=1513</link>
            <description><![CDATA[Hi,

COPASI often crashes while e.g. about 'Species' or 'Reactions' (using cmd+s shortcut).

I use COPASI 4.8 (Build 35) on Mac OS X 10.6.8. Same problem with Version 4.7 (Build 34).

There seems to be no regular pattern, thus I cannot produce the problem more specifically at the moment. I will upload a crash report next time it happens.

Simon]]></description>
            <author>Simon</author>
            <pubDate>Mon, 30 Apr 2012 10:25:53 +0100</pubDate>
        </item>
        <item>
            <title>number of Function evaluations</title>
            <link>http://www.copasi.org/tiki-view_forum_thread.php?forumId=1&amp;comments_parentId=1511</link>
            <description><![CDATA[Dear sir,
I'll like to know if the number of function evaluations shown in the progress dialog corresponds to the number of different solutions that the algorithm have been evaluating? If not, how can I get the number of solutions evaluated during the task run?
Thanks.]]></description>
            <author>juannietocastro</author>
            <pubDate>Sat, 28 Apr 2012 01:54:51 +0100</pubDate>
        </item>
        <item>
            <title>Copsasi users meeting</title>
            <link>http://www.copasi.org/tiki-view_forum_thread.php?forumId=1&amp;comments_parentId=1508</link>
            <description><![CDATA[Will you organize a new copasi users meeting this year ?
Thank's
gupi]]></description>
            <author>gupi</author>
            <pubDate>Tue, 10 Apr 2012 08:10:24 +0100</pubDate>
        </item>
        <item>
            <title>Function evaluations</title>
            <link>http://www.copasi.org/tiki-view_forum_thread.php?forumId=1&amp;comments_parentId=1507</link>
            <description><![CDATA[Dear sir,
I'll like to know if the number of function evaluations shown in the progress dialog corresponds to the number of different solutions that the algorithm have been evaluating? If not, how can I get the number of solutions evaluated during the task run?
Thanks.]]></description>
            <author>juannietocastro</author>
            <pubDate>Fri, 30 Mar 2012 21:08:41 +0100</pubDate>
        </item>
        <item>
            <title>Using Kd Values instead of Kon and Koff</title>
            <link>http://www.copasi.org/tiki-view_forum_thread.php?forumId=1&amp;comments_parentId=1502</link>
            <description><![CDATA[So far I understand the COPASI uses Kinetic rates for most of its calculations.
However I was wondering if, you can you input Kd = koff/kon?  
Lit values for Kd are easily available but koff and kon are not.  M + L  ML

For example Receptor + Hormone]]></description>
            <author>bbeidenschink</author>
            <pubDate>Tue, 27 Mar 2012 14:40:33 +0100</pubDate>
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